TB-Profiler result

Run: ERR234127
Summary

Run ID: ERR234127

Sample name:

Date: 31-03-2023 17:59:44

Number of reads: 1887535

Percentage reads mapped: 98.72

Strain: lineage2.2.1

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7493 c.192C>T synonymous_variant 0.12
gyrA 7585 p.Ser95Thr missense_variant 0.96
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490696 c.-87T>G upstream_gene_variant 0.13
fgd1 491027 p.Asn82Thr missense_variant 0.25
fgd1 491556 c.774G>A synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575428 c.81G>C synonymous_variant 0.3
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.12
rpoB 759831 p.Thr9Pro missense_variant 0.17
rpoC 762836 c.-534C>G upstream_gene_variant 0.4
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.12
mmpL5 779436 c.-956G>A upstream_gene_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1417233 c.115C>T synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.17
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.24
fabG1 1673449 p.Thr4Pro missense_variant 0.33
inhA 1674210 c.9A>C synonymous_variant 1.0
rpsA 1833712 p.Tyr57* stop_gained 0.17
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.2
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167869 p.Gly915Glu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.15
PPE35 2169866 c.747G>C synonymous_variant 0.45
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726737 p.Asp182Ala missense_variant 0.18
pepQ 2859381 c.1038C>G synonymous_variant 0.25
Rv2752c 3064552 p.Arg547Pro missense_variant 0.17
Rv2752c 3064741 p.Gly484Ala missense_variant 0.36
Rv2752c 3065265 c.927C>G synonymous_variant 0.17
thyA 3073817 p.Gln219Glu missense_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475055 p.Gly350Ala missense_variant 0.29
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641277 c.-258G>A upstream_gene_variant 1.0
fbiA 3641411 p.Val290Gly missense_variant 0.23
clpC1 4039363 p.Ala448Pro missense_variant 0.28
clpC1 4039484 c.1221T>G synonymous_variant 0.17
clpC1 4039932 p.Gly258Val missense_variant 0.38
embC 4241056 c.1194C>G synonymous_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.6
embC 4242827 p.Leu989Val missense_variant 0.18
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4248725 p.Ser738Ala missense_variant 0.33
embB 4249403 p.Thr964Pro missense_variant 0.25
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.35
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0